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mapleforest / HaploMerger2

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Best strategy #19

Open francicco opened 6 years ago

francicco commented 6 years ago

Hi,

This is a general request, not associated to any problem with HaploMerger, but I hope someone can still help me with this.

I recently assemble a genome using AllPath-LG. The assembly came relatively quite well genome size 227Mb, contig N50:62k, scaffold N50:1,130k. Now I have 11 gDNA libraries from from different specimens from 2 populations. I would like to extend and somehow update the genome for further annotation analysis using these new libraries. I have a couple of possible solutions, like use a gap filler, or assemble 11 different de novo assembly, using discovar de novo, and try to merge them with HaploMerger (Huang et al., 2012).

Do you have any advice or other ideas? Thanks F

mapleforest commented 6 years ago

It seems HM2 could not help in this case.